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BUILD report for Roleswitch on merida2

This page was generated on 2019-04-09 13:28:36 -0400 (Tue, 09 Apr 2019).

Package 1379/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Roleswitch 1.21.0
Yue Li
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/Roleswitch
Branch: master
Last Commit: 4dd3b11
Last Changed Date: 2018-10-30 11:54:31 -0400 (Tue, 30 Oct 2018)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  ERROR  skipped 
tokay2 Windows Server 2012 R2 Standard / x64  OK  ERROR  skipped  skipped 
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  ERROR  skipped  skipped 
merida2 OS X 10.11.6 El Capitan / x86_64  OK [ ERROR ] skipped  skipped 

Summary

Package: Roleswitch
Version: 1.21.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data Roleswitch
StartedAt: 2019-04-08 20:38:16 -0400 (Mon, 08 Apr 2019)
EndedAt: 2019-04-08 20:40:24 -0400 (Mon, 08 Apr 2019)
EllapsedTime: 128.2 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data Roleswitch
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* checking for file ‘Roleswitch/DESCRIPTION’ ... OK
* preparing ‘Roleswitch’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
Loading required package: pracma
Loading required package: reshape
Loading required package: plotrix
Loading required package: microRNA
Loading required package: biomaRt
Loading required package: Biostrings
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: ‘BiocGenerics’

The following objects are masked from ‘package:parallel’:

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from ‘package:stats’:

    IQR, mad, sd, var, xtabs

The following objects are masked from ‘package:base’:

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colMeans, colSums, colnames,
    dirname, do.call, duplicated, eval, evalq, get, grep, grepl,
    intersect, is.unsorted, lapply, mapply, match, mget, order, paste,
    pmax, pmax.int, pmin, pmin.int, rank, rbind, rowMeans, rowSums,
    rownames, sapply, setdiff, sort, table, tapply, union, unique,
    unsplit, which, which.max, which.min

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: ‘S4Vectors’

The following objects are masked from ‘package:reshape’:

    expand, rename

The following object is masked from ‘package:base’:

    expand.grid

Loading required package: IRanges
Loading required package: XVector

Attaching package: ‘Biostrings’

The following object is masked from ‘package:base’:

    strsplit

Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: DBI

Start roleswitch with 4 miRNA and 10 mRNA
1: max(p.x-p.x.prev)=1.00000
2: max(p.x-p.x.prev)=0.00022
3: max(p.x-p.x.prev)=0.00007
4: max(p.x-p.x.prev)=0.00000

Error: processing vignette 'Roleswitch.Rnw' failed with diagnostics:
 chunk 4 (label = seedmatrix) 
Error in getBM(mart = mart, attributes = c(mRNA_id_type, "ensembl_gene_id",  : 
  The query to the BioMart webservice returned an invalid result: biomaRt expected a character string of length 1. 
Please report this on the support site at http://support.bioconductor.org
Execution halted